Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2190Ac_(RVBD2190Ac)_2453466_2453744
DateMon Aug 5 13:25:31 BST 2019
Unique Job ID2a8c2aa5f6c7dc0a
SequenceMSQAERNDPM ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:52.613 Y:52.860 Z:43.079
Model (left) based on template c6btmB_
Top template information
PDB header:membrane protein
Chain: B: PDB Molecule:alternative complex iii subunit b;
PDBTitle: structure of alternative complex iii from flavobacterium johnsoniae2 (wild type)
Confidence and coverage
Confidence: 34.8% Coverage: 39%
36 residues ( 39% of your sequence) have been modelled with 34.8% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
Please note: You must be registered and logged in to use Phyrealarm.
3D viewing
Interactive 3D view in JSmol
For other options to view your downloaded structure offline see the FAQ

Sequence analysis 

Download FASTA version

Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c6btmB_
34.8 28
PDB header:membrane protein
Chain: B: PDB Molecule:alternative complex iii subunit b;
PDBTitle: structure of alternative complex iii from flavobacterium johnsoniae2 (wild type)
2c6f0kB_
27.1 34
PDB header:membrane protein
Chain: B: PDB Molecule:fe-s-cluster-containing hydrogenase;
PDBTitle: alternative complex iii
3c1ag7A_
26.2 46
PDB header:neurotoxin
Chain: A: PDB Molecule:conotoxin gs;
PDBTitle: conotoxin gs, nmr, 20 structures
4d1ag7a_
26.2 46
Fold:Knottins (small inhibitors, toxins, lectins)
Superfamily:omega toxin-like
Family:Conotoxin
5c6jdpA_
25.9 32
PDB header:antitoxin
Chain: A: PDB Molecule:imm52 family protein;
PDBTitle: the imm52 family protein tsit (pa3908) from pseudomonas aeruginosa
6d1jcea1
25.8 29
Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Actin/HSP70
7c4j3cB_
25.1 28
PDB header:transferase
Chain: B: PDB Molecule:ribosomal rna small subunit methyltransferase e;
PDBTitle: crystal structure of 16s ribosomal rna methyltransferase rsme
8c5frtC_
24.0 31
PDB header:oxidoreductase
Chain: C: PDB Molecule:dimeric (2fe-2s) protein;
PDBTitle: structure of the fesii (shethna) protein of azotobacter vinelandii
9c2e2zA_
21.1 38
PDB header:protein transport, chaperone regulator
Chain: A: PDB Molecule:tim15;
PDBTitle: solution nmr structure of yeast tim15, co-chaperone of2 mitochondrial hsp70
10d2dexx1
19.1 33
Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily:Peptidylarginine deiminase Pad4, middle domain
Family:Peptidylarginine deiminase Pad4, middle domain
11c2v51E_
18.8 35
PDB header:structural protein/contractile protein
Chain: E: PDB Molecule:mkl/myocardin-like protein 1;
PDBTitle: structure of mal-rpel1 complexed to actin
12d1gl1i_
18.5 28
Fold:PMP inhibitors
Superfamily:PMP inhibitors
Family:PMP inhibitors
13c2v51F_
17.8 35
PDB header:structural protein/contractile protein
Chain: F: PDB Molecule:mkl/myocardin-like protein 1;
PDBTitle: structure of mal-rpel1 complexed to actin
14c3i38L_
17.6 28
PDB header:chaperone
Chain: L: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
15c2ckpB_
16.1 32
PDB header:transferase
Chain: B: PDB Molecule:choline kinase alpha;
PDBTitle: crystal structure of human choline kinase alpha-2 in2 complex with adp
16c3f2rB_
15.8 23
PDB header:transferase
Chain: B: PDB Molecule:choline kinase alpha;
PDBTitle: crystal structure of human choline kinase alpha in complex with2 hemicholinium-3
17c3i38K_
15.2 25
PDB header:chaperone
Chain: K: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
18c3h35B_
15.1 38
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein abo_0056;
PDBTitle: structure of the uncharacterized protein abo_0056 from the2 hydrocarbon-degrading marine bacterium alcanivorax borkumensis sk2.
19c4mo1B_
14.9 33
PDB header:transcription regulator
Chain: B: PDB Molecule:antitermination protein q;
PDBTitle: crystal structure of antitermination protein q from bacteriophage2 lambda. northeast structural genomics consortium target or18a.
20d1bupa1
14.6 18
Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Actin/HSP70
21c2oolA_
not modelled 14.5 28
PDB header:signaling protein
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of the chromophore-binding domain of an unusual2 bacteriophytochrome rpbphp3 from r. palustris
22c3i38F_
not modelled 13.8 27
PDB header:chaperone
Chain: F: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
23c3kw2A_
not modelled 13.0 38
PDB header:transferase
Chain: A: PDB Molecule:probable r-rna methyltransferase;
PDBTitle: crystal structure of probable rrna-methyltransferase from2 porphyromonas gingivalis
24c2egwB_
not modelled 12.0 20
PDB header:rna methyltransferase
Chain: B: PDB Molecule:upf0088 protein aq_165;
PDBTitle: crystal structure of rrna methyltransferase with sah ligand
25c3eetA_
not modelled 12.0 41
PDB header:transcription regulator
Chain: A: PDB Molecule:putative gntr-family transcriptional regulator;
PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator
26d1dkgd1
not modelled 11.9 19
Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Actin/HSP70
27c3dxqB_
not modelled 10.8 26
PDB header:transferase
Chain: B: PDB Molecule:choline/ethanolamine kinase family protein;
PDBTitle: crystal structure of choline/ethanolamine kinase family protein2 (np_106042.1) from mesorhizobium loti at 2.55 a resolution
28d1v6za2
not modelled 10.6 19
Fold:alpha/beta knot
Superfamily:alpha/beta knot
Family:YggJ C-terminal domain-like
29c4qxaB_
not modelled 10.6 25
PDB header:protein transport/protein binding
Chain: B: PDB Molecule:small g protein signaling modulator 1;
PDBTitle: crystal structure of the rab9a-rutbc2 rbd complex
30c5e5bA_
not modelled 10.5 7
PDB header:transcription
Chain: A: PDB Molecule:fact complex subunit spt16;
PDBTitle: crystal structure of human spt16 n-terminal domain
31c3i38G_
not modelled 10.5 25
PDB header:chaperone
Chain: G: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
32c3i38A_
not modelled 10.5 25
PDB header:chaperone
Chain: A: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
33d1vhka2
not modelled 10.4 19
Fold:alpha/beta knot
Superfamily:alpha/beta knot
Family:YggJ C-terminal domain-like
34d1l5pa_
not modelled 10.3 26
Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin-related
35d1kp0a2
not modelled 10.2 10
Fold:Creatinase/aminopeptidase
Superfamily:Creatinase/aminopeptidase
Family:Creatinase/aminopeptidase
36c4uedB_
not modelled 10.2 40
PDB header:translation
Chain: B: PDB Molecule:eukaryotic translation factor 4e-binding protein 1;
PDBTitle: complex of human eif4e with the 4e binding protein 4e-bp1
37c3cb5A_
not modelled 10.0 14
PDB header:transcription
Chain: A: PDB Molecule:fact complex subunit spt16;
PDBTitle: crystal structure of the s. pombe peptidase homology domain of fact2 complex subunit spt16 (form a)
38d1wo9a_
not modelled 9.9 32
Fold:PMP inhibitors
Superfamily:PMP inhibitors
Family:PMP inhibitors
39c5fvcF_
not modelled 9.7 38
PDB header:viral protein
Chain: F: PDB Molecule:hmpv nucleoprotein;
PDBTitle: structure of rna-bound decameric hmpv nucleoprotein
40c5vm8A_
not modelled 9.4 12
PDB header:transferase
Chain: A: PDB Molecule:ribosomal rna small subunit methyltransferase e;
PDBTitle: crystal structure of a ribosomal rna small subunit methyltransferase e2 from neisseria gonorrhoeae bound to s-adenosyl methionine
41c3tvjI_
not modelled 9.3 28
PDB header:hydrolase
Chain: I: PDB Molecule:protease inhibitor sgpi-2;
PDBTitle: catalytic fragment of masp-2 in complex with its specific inhibitor2 developed by directed evolution on sgci scaffold
42c3i38I_
not modelled 9.3 23
PDB header:chaperone
Chain: I: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
43d1gl0i_
not modelled 9.2 32
Fold:PMP inhibitors
Superfamily:PMP inhibitors
Family:PMP inhibitors
44d1vqow1
not modelled 9.2 50
Fold:Ribosomal protein L30p/L7e
Superfamily:Ribosomal protein L30p/L7e
Family:Ribosomal protein L30p/L7e
45c5fmrC_
not modelled 9.0 24
PDB header:transport protein
Chain: C: PDB Molecule:intraflagellar transport protein component ift52;
PDBTitle: crift52 n-terminal domain
46c4e8bA_
not modelled 9.0 38
PDB header:transferase
Chain: A: PDB Molecule:ribosomal rna small subunit methyltransferase e;
PDBTitle: crystal structure of 16s rrna methyltransferase rsme from e.coli
47c3i38D_
not modelled 8.9 25
PDB header:chaperone
Chain: D: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
48d1lvaa3
not modelled 8.8 8
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:C-terminal fragment of elongation factor SelB
49c5ajaC_
not modelled 8.5 42
PDB header:viral protein
Chain: C: PDB Molecule:sam domain and hd domain-containing protein;
PDBTitle: crystal structure of mandrill samhd1 (amino acid residues 1-114)2 bound to vpx isolated from mandrill and human dcaf1 (amino3 acid residues 1058-1396)
50c1k3rA_
not modelled 8.2 35
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved protein mt0001;
PDBTitle: crystal structure of the methyltransferase with a knot from2 methanobacterium thermoautotrophicum
51c6czaB_
not modelled 8.0 47
PDB header:oxidoreductase
Chain: B: PDB Molecule:4fe-4s ferredoxin, iron-sulfur binding domain protein;
PDBTitle: the arsenate respiratory reductase (arr) complex from shewanella sp.2 ana-3 bound to phosphate
52c2hfvA_
not modelled 8.0 43
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein rpa1041;
PDBTitle: solution nmr structure of protein rpa1041 from pseudomonas2 aeruginosa. northeast structural genomics consortium3 target pat90.
53c5ce6A_
not modelled 7.6 19
PDB header:transcription
Chain: A: PDB Molecule:fact-spt16;
PDBTitle: n-terminal domain of fact complex subunit spt16 from cicer arietinum2 (chickpea)
54c5cnxB_
not modelled 7.4 15
PDB header:hydrolase
Chain: B: PDB Molecule:aminopeptidase ypdf;
PDBTitle: crystal structure of xaa-pro aminopeptidase from escherichia coli k12
55c2xttA_
not modelled 7.3 32
PDB header:hydrolase
Chain: A: PDB Molecule:protease inhibitor sgpi-1;
PDBTitle: bovine trypsin in complex with evolutionary enhanced schistocerca2 gregaria protease inhibitor 1 (sgpi-1-p02)
56d1kqfb1
not modelled 7.3 44
Fold:Ferredoxin-like
Superfamily:4Fe-4S ferredoxins
Family:Ferredoxin domains from multidomain proteins
57c4phtC_
not modelled 7.2 64
PDB header:protein transport
Chain: C: PDB Molecule:general secretory pathway protein e;
PDBTitle: atpase gspe in complex with the cytoplasmic domain of gspl from the2 vibrio vulnificus type ii secretion system
58c2o9bA_
not modelled 7.1 28
PDB header:transferase
Chain: A: PDB Molecule:bacteriophytochrome;
PDBTitle: crystal structure of bacteriophytochrome chromophore binding domain
59c3d3kD_
not modelled 7.0 11
PDB header:protein binding
Chain: D: PDB Molecule:enhancer of mrna-decapping protein 3;
PDBTitle: crystal structure of human edc3p
60c5dbuI_
not modelled 7.0 30
PDB header:lyase
Chain: I: PDB Molecule:deoxyribose-phosphate aldolase;
PDBTitle: crystal structure of 2-deoxyribose-5-phosphate aldolase (1-220) from2 streptococcus suis
61c3m1mA_
not modelled 7.0 21
PDB header:replication
Chain: A: PDB Molecule:orf904;
PDBTitle: crystal structure of the primase-polymerase from sulfolobus islandicus
62c5fmsA_
not modelled 7.0 21
PDB header:transport protein
Chain: A: PDB Molecule:intraflagellar transport protein 52 homolog;
PDBTitle: mmift52 n-terminal domain
63c3ah7A_
not modelled 6.9 27
PDB header:metal binding protein
Chain: A: PDB Molecule:[2fe-2s]ferredoxin;
PDBTitle: crystal structure of the isc-like [2fe-2s] ferredoxin (fdxb) from2 pseudomonas putida jcm 20004
64c3f2rA_
not modelled 6.9 32
PDB header:transferase
Chain: A: PDB Molecule:choline kinase alpha;
PDBTitle: crystal structure of human choline kinase alpha in complex with2 hemicholinium-3
65c2jm1A_
not modelled 6.7 33
PDB header:metal binding protein
Chain: A: PDB Molecule:transcriptional regulator atrx;
PDBTitle: structures and chemical shift assignments for the add domain of the2 atrx protein
66c2f91B_
not modelled 6.6 32
PDB header:hydrolase/hydrolase inhibitor
Chain: B: PDB Molecule:serine protease inhibitor i/ii;
PDBTitle: 1.2a resolution structure of a crayfish trypsin complexed2 with a peptide inhibitor, sgti
67c3i38H_
not modelled 6.5 21
PDB header:chaperone
Chain: H: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
68c5laaB_
not modelled 6.4 26
PDB header:transferase
Chain: B: PDB Molecule:tetrahydromethanopterin s-methyltransferase subunit a;
PDBTitle: x-ray structure of the methyltransferase subunit a from methanothermus2 fervidus in complex with cobalamin
69d1d1da1
not modelled 6.0 44
Fold:Acyl carrier protein-like
Superfamily:Retrovirus capsid dimerization domain-like
Family:Retrovirus capsid protein C-terminal domain
70c5fzxA_
not modelled 5.9 45
PDB header:toxin
Chain: A: PDB Molecule:u5-scytotoxin-sth1a;
PDBTitle: high resolution solution nmr structure of the spider venom2 peptide u5-scytotoxin-sth1a
71c4djzH_
not modelled 5.8 28
PDB header:hydrolase/hydrolase inhibitor
Chain: H: PDB Molecule:protease inhibitor sgpi-2;
PDBTitle: catalytic fragment of masp-1 in complex with its specific inhibitor2 developed by directed evolution on sgci scaffold
72c2a45H_
not modelled 5.8 30
PDB header:hydrolase/hydrolase inhibitor
Chain: H: PDB Molecule:fibrinogen beta chain;
PDBTitle: crystal structure of the complex between thrombin and the central "e"2 region of fibrin
73c3edpB_
not modelled 5.8 38
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:lin2111 protein;
PDBTitle: the crystal structure of the protein lin2111 (functionally unknown)2 from listeria innocua clip11262
74d1i7ha_
not modelled 5.7 30
Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin-related
75d2cjoa_
not modelled 5.7 34
Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin-related
76c1yw7A_
not modelled 5.7 20
PDB header:hydrolase
Chain: A: PDB Molecule:methionine aminopeptidase 2;
PDBTitle: h-metap2 complexed with a444148
77c2wj8N_
not modelled 5.6 30
PDB header:rna binding protein/rna
Chain: N: PDB Molecule:nucleoprotein;
PDBTitle: respiratory syncitial virus ribonucleoprotein
78c2ivfB_
not modelled 5.5 42
PDB header:oxidoreductase
Chain: B: PDB Molecule:ethylbenzene dehydrogenase beta-subunit;
PDBTitle: ethylbenzene dehydrogenase from aromatoleum aromaticum
79c1ti2F_
not modelled 5.5 32
PDB header:oxidoreductase
Chain: F: PDB Molecule:pyrogallol hydroxytransferase small subunit;
PDBTitle: crystal structure of pyrogallol-phloroglucinol transhydroxylase from2 pelobacter acidigallici
80d2cu2a1
not modelled 5.4 22
Fold:Single-stranded left-handed beta-helix
Superfamily:Guanosine diphospho-D-mannose pyrophosphorylase/mannose-6-phosphate isomerase linker domain
Family:Guanosine diphospho-D-mannose pyrophosphorylase/mannose-6-phosphate isomerase linker domain
81d1mzha_
not modelled 5.4 23
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
82d2e8aa1
not modelled 5.4 22
Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Actin/HSP70
83c5uj5A_
not modelled 5.4 19
PDB header:electron transport
Chain: A: PDB Molecule:adrenodoxin;
PDBTitle: solution structure of the oxidized iron-sulfur protein adrenodoxin2 from encephalitozoon cuniculi. seattle structural genomics center for3 infectious disease target encua.00705.a
84d1es6a2
not modelled 5.2 44
Fold:EV matrix protein
Superfamily:EV matrix protein
Family:EV matrix protein
85c2f5zK_
not modelled 5.1 41
PDB header:oxidoreductase/protein binding
Chain: K: PDB Molecule:pyruvate dehydrogenase protein x component;
PDBTitle: crystal structure of human dihydrolipoamide dehydrogenase2 (e3) complexed to the e3-binding domain of human e3-3 binding protein
86c3i38C_
not modelled 5.1 20
PDB header:chaperone
Chain: C: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
87c3i38E_
not modelled 5.1 20
PDB header:chaperone
Chain: E: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite